Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold247
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4737410
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 16 of 29
Found at i:2425030 original size:17 final size:18
Alignment explanation
Indices: 2424997--2425037 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
2424987 AATTAAAATA
2424997 GTTTCAAAACTAAGAAAC
1 GTTTCAAAACTAAGAAAC
*
2425015 GTTTCAAATC-AAGAAAC
1 GTTTCAAAACTAAGAAAC
*
2425032 ATTTCA
1 GTTTCA
2425038 GATAAAGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (18 bp):
GTTTCAAAACTAAGAAAC
Found at i:2426421 original size:30 final size:31
Alignment explanation
Indices: 2426387--2426462 Score: 127
Period size: 31 Copynumber: 2.5 Consensus size: 31
2426377 TCATTTTTCA
* *
2426387 ATGTATCGATACATTCTGTC-TTTTACCCAG
1 ATGTATCGATACATTATATCTTTTTACCCAG
2426417 ATGTATCGATACATTATATCTTTTTACCCAG
1 ATGTATCGATACATTATATCTTTTTACCCAG
2426448 ATGTATCGATACATT
1 ATGTATCGATACATT
2426463 TTTCAATGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
30 18 0.42
31 25 0.58
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.41
Consensus pattern (31 bp):
ATGTATCGATACATTATATCTTTTTACCCAG
Found at i:2434443 original size:15 final size:15
Alignment explanation
Indices: 2434420--2434467 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
2434410 ATTTCACCAA
*
2434420 ATCCGCCACAAAATC
1 ATCCACCACAAAATC
** *
2434435 ATCCACCACCTAATT
1 ATCCACCACAAAATC
*
2434450 ACCCACCACAAAATC
1 ATCCACCACAAAATC
2434465 ATC
1 ATC
2434468 GATACACCCC
Statistics
Matches: 24, Mismatches: 9, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.40, C:0.42, G:0.02, T:0.17
Consensus pattern (15 bp):
ATCCACCACAAAATC
Found at i:2439076 original size:19 final size:19
Alignment explanation
Indices: 2439052--2439119 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
2439042 AATTCAACGA
2439052 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2439071 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2439086 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2439103 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2439120 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2439090 original size:32 final size:32
Alignment explanation
Indices: 2439054--2439116 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2439044 TTCAACGATT
*
2439054 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2439086 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2439117 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2439091 original size:13 final size:13
Alignment explanation
Indices: 2439073--2439097 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2439063 ACATAAGTTT
2439073 TGTATCGATACAA
1 TGTATCGATACAA
2439086 TGTATCGATACA
1 TGTATCGATACA
2439098 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2439177 original size:13 final size:13
Alignment explanation
Indices: 2439159--2439184 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2439149 CATTTTTCTG
2439159 TGTATCGATACAT
1 TGTATCGATACAT
2439172 TGTATCGATACAT
1 TGTATCGATACAT
2439185 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2439183 original size:33 final size:33
Alignment explanation
Indices: 2439141--2439205 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
2439131 CAAGGAAATA
***
2439141 TATCGATACATTTTTCTGTGTATCGATACATTG
1 TATCGATACATGGATCTGTGTATCGATACATTG
*
2439174 TATCGATACATGGATCTTTGTATCGATACATT
1 TATCGATACATGGATCTGTGTATCGATACATT
2439206 TGGAAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (33 bp):
TATCGATACATGGATCTGTGTATCGATACATTG
Found at i:2441719 original size:28 final size:27
Alignment explanation
Indices: 2441655--2441723 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
2441645 CTTCACAATC
**
2441655 GGGGATACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* * *
2441682 GGGGATACTCTAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
2441710 GGGGATACTCCAAC
1 GGGGATACTCCAAC
2441724 TCCGGTTTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
27 20 0.57
28 15 0.43
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:2441836 original size:51 final size:52
Alignment explanation
Indices: 2441546--2441880 Score: 177
Period size: 51 Copynumber: 6.3 Consensus size: 52
2441536 AATTCTCCAC
* *
2441546 AATCGTGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAATTTTCTAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCGAAAACACTAATTTTCTAT
* * * * * *
2441597 ATTCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAA-TTTCTTCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTTC-GAAAACACTAATTTTC-T-AT
* * ** * * * ***
2441651 AATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCTAA-CCCCGT-T
1 AATCGGGGATACTCCAACTCCGATTTTATTTTC--GAAAACACTAATTTTC-TAT
* * ** * * *
2441702 ATTTCCGAGGGGATACTCCAACTCCGGTTTTA-TCGCTAAAACACTAATTTTTCCAC
1 A-AT-C--GGGGATACTCCAACTCCGATTTTATTTTCGAAAACACTAA-TTTTCTAT
* *
2441758 AATCGGGGATACTCCAA-TCCTGGTTTTATTTTC-AAGACACTAATTTTCTAT
1 AATCGGGGATACTCCAACTCC-GATTTTATTTTCGAAAACACTAATTTTCTAT
* * * *
2441809 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAA-TTTCTTCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTTC-GAAAACACTAATTTTC-T-AT
*
2441863 AATTGGGGATACTCCAAC
1 AATCGGGGATACTCCAAC
2441881 CCCGTTATTT
Statistics
Matches: 211, Mismatches: 52, Indels: 39
0.70 0.17 0.13
Matches are distributed among these distances:
51 65 0.31
52 46 0.22
53 30 0.14
54 46 0.22
55 18 0.09
56 3 0.01
57 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.33
Consensus pattern (52 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTTCGAAAACACTAATTTTCTAT
Found at i:2441872 original size:105 final size:104
Alignment explanation
Indices: 2441538--2441879 Score: 329
Period size: 105 Copynumber: 3.2 Consensus size: 104
2441528 AGTTTATCAA
* * * *
2441538 TTCTCCACAATCGTGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATATTCGG
1 TTCTTCACAATCGGGGATACTCCAA-TCCGGTTTTATTTTCAAAACACTAATTTTCTATATTCGG
*
2441603 GGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAAT
65 GGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAAT
* * * ** * * * ***
2441643 TTCTTCACAATCGGGGATACTCCAACCCCG-TTAATCATCGGGGATACTCTAA-CCCCGT-TATT
1 TTCTTCACAATCGGGGATACTCCAATCCGGTTTTATTTTC---AAAACACTAATTTTC-TATA-T
* * *
2441705 TCCGAGGGGATACTCCAACTCCGGTTTTA--TCGC-TAAAACACTAAT
61 T-C--GGGGATACTCCAACTCCGATTTTATTTC-CAAAAAACACCAAT
* *
2441750 TT-TTCCACAATCGGGGATACTCCAATCCTGGTTTTATTTTCAAGACACTAATTTTCTATAATCG
1 TTCTT-CACAATCGGGGATACTCCAATCC-GGTTTTATTTTCAAAACACTAATTTTCTATATTCG
2441814 GGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAAT
64 GGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAAT
*
2441855 TTCTTCACAATTGGGGATACTCCAA
1 TTCTTCACAATCGGGGATACTCCAA
2441880 CCCCGTTATT
Statistics
Matches: 184, Mismatches: 35, Indels: 36
0.72 0.14 0.14
Matches are distributed among these distances:
103 29 0.16
104 3 0.02
105 59 0.32
106 23 0.12
107 40 0.22
108 2 0.01
109 28 0.15
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (104 bp):
TTCTTCACAATCGGGGATACTCCAATCCGGTTTTATTTTCAAAACACTAATTTTCTATATTCGGG
GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAAT
Found at i:2441980 original size:80 final size:82
Alignment explanation
Indices: 2441810--2441988 Score: 274
Period size: 80 Copynumber: 2.2 Consensus size: 82
2441800 ATTTTCTATA
* *
2441810 ATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATTGGGGATAC
1 ATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATAC
2441875 TCCAACCCCGTTATTTC
66 TCCAACCCCGTTATTTC
* * *
2441892 -TGAGGGGATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAGTCGAGGATA
1 AT-CGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATA
*
2441954 CTCCAACCTCGTTATTTC
65 CTCCAACCCCGTTATTTC
2441972 ATCGGGGATACTCCAAC
1 ATCGGGGATACTCCAAC
2441989 CCCATTACTT
Statistics
Matches: 88, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
80 44 0.50
81 15 0.17
82 29 0.33
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (82 bp):
ATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATAC
TCCAACCCCGTTATTTC
Found at i:2441981 original size:28 final size:28
Alignment explanation
Indices: 2441949--2442020 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
2441939 TCACAGTCGA
* * * **
2441949 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCCCATTACTTCAGAGG
*
2441977 GGATACTCCAACCCCATTACTTCCGAGG
1 GGATACTCCAACCCCATTACTTCAGAGG
2442005 GGATACTCCAACCCCA
1 GGATACTCCAACCCCA
2442021 GCTTTATTCC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCATTACTTCAGAGG
Found at i:2445885 original size:26 final size:26
Alignment explanation
Indices: 2445838--2445894 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
2445828 TAGACTTTGT
* * **
2445838 ATCATGCAACCATGATAGCATTCCAC
1 ATCATGCAACCATAATACCATTAAAC
**
2445864 ATCATGCATTCATAATACCATTAAAC
1 ATCATGCAACCATAATACCATTAAAC
2445890 ATCAT
1 ATCAT
2445895 TATTTTTATA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.39, C:0.26, G:0.07, T:0.28
Consensus pattern (26 bp):
ATCATGCAACCATAATACCATTAAAC
Found at i:2446095 original size:13 final size:13
Alignment explanation
Indices: 2446033--2446106 Score: 55
Period size: 13 Copynumber: 5.6 Consensus size: 13
2446023 CTTTTTGCCA
2446033 TTTGTCAAGAAA-
1 TTTGTCAAGAAAC
2446045 TTATCGTCAAG-AAC
1 TT-T-GTCAAGAAAC
* **
2446059 TTCTGTCGAGAATG
1 TT-TGTCAAGAAAC
2446073 TTTGTC-AGAAAC
1 TTTGTCAAGAAAC
*
2446085 TTTGTCAAGAAAT
1 TTTGTCAAGAAAC
2446098 TTTCGTCAA
1 TTT-GTCAA
2446107 CACGACCCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
12 12 0.24
13 20 0.41
14 17 0.35
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (13 bp):
TTTGTCAAGAAAC
Found at i:2446105 original size:26 final size:26
Alignment explanation
Indices: 2446033--2446106 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 26
2446023 CTTTTTGCCA
*
2446033 TTTGTCAAGAAATTATCGTCAAGAAC
1 TTTGTCAAGAAATTTTCGTCAAGAAC
*
2446059 TTCTGTCGAG-AATGTTT-GTC-AGAAAC
1 TT-TGTCAAGAAAT-TTTCGTCAAG-AAC
2446085 TTTGTCAAGAAATTTTCGTCAA
1 TTTGTCAAGAAATTTTCGTCAA
2446107 CACGACCCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
25 11 0.28
26 19 0.49
27 9 0.23
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (26 bp):
TTTGTCAAGAAATTTTCGTCAAGAAC
Found at i:2446175 original size:28 final size:28
Alignment explanation
Indices: 2446116--2446595 Score: 552
Period size: 28 Copynumber: 16.8 Consensus size: 28
2446106 ACACGACCCT
2446116 TTTCAAAGCCCACAAGTCAAGTGGCATCC
1 TTTCAAAGCCCACAAGTC-AGTGGCATCC
* *
2446145 TTTCAAAGTCCACATGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
2446173 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
2446201 TTTCAAAGCTCAAAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
2446229 TTTCAAAGCCCATAAGTCAATGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
2446257 TTCTCAAAGCCTACAAGTCAGTGGCATCC
1 TT-TCAAAGCCCACAAGTCAGTGGCATCC
**
2446286 TTTCAAAGCCCACTTGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
2446314 TTTTCAAAGCCCACGAGTCAGTGGCATCC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCC
2446343 TTCTCAAAGCCCACAAGTCAGTGGCATCC
1 TT-TCAAAGCCCACAAGTCAGTGGCATCC
* *
2446372 TTTCAAAGCCCATATGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
** * *
2446400 TTTTCAAAGCCCATGAGTCAGCGCCATCC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCC
*
2446429 TTCTCAAAGCCTACAAGTCAGTGGCATCC
1 TT-TCAAAGCCCACAAGTCAGTGGCATCC
* * *
2446458 TTCTCAAAGCCCATAAGTCAGTGACACCCC
1 TT-TCAAAGCCCACAAGTCAGTGGCA-TCC
** *
2446488 TTT--AAGCCCACACAAGTTGGTGGCAACC
1 TTTCAAAG-CC-CACAAGTCAGTGGCATCC
* * *
2446516 TCTCTCAAAGCCCACAAGTTAATGGCAACC
1 T-T-TCAAAGCCCACAAGTCAGTGGCATCC
* *
2446546 TTTCGAAGCCCACAAGTTAGTGGCA-CC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
2446573 TTTTCGAAGCCCACAAATCAGTG
1 -TTTCAAAGCCCACAAGTCAGTG
2446596 CAGGTTGGTG
Statistics
Matches: 394, Mismatches: 44, Indels: 27
0.85 0.09 0.06
Matches are distributed among these distances:
27 5 0.01
28 186 0.47
29 176 0.45
30 22 0.06
31 2 0.01
32 3 0.01
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCC
Found at i:2446291 original size:57 final size:56
Alignment explanation
Indices: 2446116--2446595 Score: 552
Period size: 57 Copynumber: 8.4 Consensus size: 56
2446106 ACACGACCCT
* *
2446116 TTTCAAAGCCCACAAGTCAAGTGGCATCCTTTCAAAGTCCACATGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTC-AGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCC
* *
2446173 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCTCAAAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCC
* * *
2446229 TTTCAAAGCCCATAAGTCAATGGCATCCTTCTCAAAGCCTACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTCAGTGGCATCC
** *
2446286 TTTCAAAGCCCACTTGTCAGTGGCATCCTTTTCAAAGCCCACGAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
2446343 TTCTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCATATGTCAGTGGCATCC
1 TT-TCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCC
** * * *
2446400 TTTTCAAAGCCCATGAGTCAGCGCCATCCTTCTCAAAGCCTACAAGTCAGTGGCATCC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTCAGTGGCATCC
* * * ** *
2446458 TTCTCAAAGCCCATAAGTCAGTGACACCCCTTT--AAGCCCACACAAGTTGGTGGCAACC
1 TT-TCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAG-CC-CACAAGTCAGTGGCATCC
* * * * *
2446516 TCTCTCAAAGCCCACAAGTTAATGGCAACCTTTCGAAGCCCACAAGTTAGTGGCA-CC
1 T-T-TCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCC
* *
2446573 TTTTCGAAGCCCACAAATCAGTG
1 -TTTCAAAGCCCACAAGTCAGTG
2446596 CAGGTTGGTG
Statistics
Matches: 365, Mismatches: 45, Indels: 27
0.84 0.10 0.06
Matches are distributed among these distances:
56 81 0.22
57 147 0.40
58 107 0.29
59 27 0.07
60 3 0.01
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (56 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCC
Found at i:2447564 original size:30 final size:29
Alignment explanation
Indices: 2447527--2447598 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 29
2447517 AAAAGTCACA
* * * *
2447527 TTTTTACCCAGATCTATCGATACATTTTG
1 TTTTTACCCAGATATATCGATACACTATC
2447556 TCTTTTACCCAGATATATCGATACACTATC
1 T-TTTTACCCAGATATATCGATACACTATC
2447586 TTTTTACCCAGAT
1 TTTTTACCCAGAT
2447599 GTTTCAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 13 0.34
30 25 0.66
ACGTcount: A:0.26, C:0.24, G:0.08, T:0.42
Consensus pattern (29 bp):
TTTTTACCCAGATATATCGATACACTATC
Found at i:2456086 original size:52 final size:52
Alignment explanation
Indices: 2456008--2456136 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
2455998 CGAAATATGA
2456008 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
*
2456060 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
*
2456112 AAATTTGCCTACATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2456137 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:2456147 original size:52 final size:51
Alignment explanation
Indices: 2456008--2456156 Score: 228
Period size: 52 Copynumber: 2.9 Consensus size: 51
2455998 CGAAATATGA
2456008 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
2456060 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* *
2456112 AAATTTGCCTACATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
2456157 ATGTATCGAT
Statistics
Matches: 91, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
51 2 0.02
52 89 0.98
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:2456163 original size:13 final size:13
Alignment explanation
Indices: 2456145--2456169 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2456135 CAAAGATCAG
2456145 TGTATCGATACAA
1 TGTATCGATACAA
2456158 TGTATCGATACA
1 TGTATCGATACA
2456170 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2456249 original size:13 final size:14
Alignment explanation
Indices: 2456226--2456255 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
2456216 TCGATACAAA
2456226 ACATATGTATCGAT
1 ACATATGTATCGAT
2456240 ACAT-TGTATCGAT
1 ACATATGTATCGAT
2456253 ACA
1 ACA
2456256 ACACTTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (14 bp):
ACATATGTATCGAT
Found at i:2456250 original size:32 final size:33
Alignment explanation
Indices: 2456207--2456275 Score: 104
Period size: 32 Copynumber: 2.1 Consensus size: 33
2456197 GGCAGTAGCT
2456207 TACATTATATCGATACAAAAC-ATATGTATCGA
1 TACATTATATCGATACAAAACTATATGTATCGA
* * *
2456239 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTATATCGATACAAAACTATATGTATCGA
2456272 TACA
1 TACA
2456276 AATCGTTGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 19 0.58
33 14 0.42
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.33
Consensus pattern (33 bp):
TACATTATATCGATACAAAACTATATGTATCGA
Found at i:2457089 original size:48 final size:48
Alignment explanation
Indices: 2457018--2457338 Score: 320
Period size: 48 Copynumber: 6.6 Consensus size: 48
2457008 GTTAGACTTG
* * * *** * *
2457018 AAGGTGACAATGTGGTGATTCAAGGCCGGTGACATTAGTCTTAAAGAC
1 AAGGTGCCAATATGCTGATTCAAGGCCACCGACATTGGACTTAAAGAC
* * * **
2457066 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGGT
1 AAGGTGCCAATATGCTGATTCAAGGCCACCGACATTGGACTTAAAGAC
* * * * * *
2457114 GAGGTACCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCACCGACATTGGACTTAAAGA-C
* * * *
2457163 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGGTGCC
1 AAGGTGCCAATATGCTGATTCAAGGCCACCGACATTGGACTTAAA---GAC
* * *
2457214 AAAGGCGCCAATATGCTGATTCAAGGCCACCGATATTGGACTTAAAGATG
1 -AAGGTGCCAATATGCTGATTCAAGGCCACCGACATTGGACTTAAAGA-C
* * *
2457264 AA-GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAC
1 AAGGTGCCAATATGCTGATTCAAGGCCACCGACATTGGACTTAAAGAC
2457311 AAGGTGCCAATATGCTGATTCAAGGCCA
1 AAGGTGCCAATATGCTGATTCAAGGCCA
2457339 GCTATATTGG
Statistics
Matches: 228, Mismatches: 38, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
47 2 0.01
48 141 0.62
49 42 0.18
52 43 0.19
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (48 bp):
AAGGTGCCAATATGCTGATTCAAGGCCACCGACATTGGACTTAAAGAC
Found at i:2457282 original size:149 final size:145
Alignment explanation
Indices: 2457016--2457355 Score: 475
Period size: 149 Copynumber: 2.3 Consensus size: 145
2457006 CAGTTAGACT
* * * * * * * *
2457016 TGAAGGTGACAATGTGGTGATTCAAGGCCGGTGACATTAGTCTTAAAGACAAGGTGCCAATATGC
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGACAAGGCGCCAATATGC
* * * *
2457081 TGATTCAAGGCCAGCGATATTGGGCTTAAAGGTGAGGTACCAATGTGCTGATTCAAGGCCAGCTA
66 TGATTCAAGGCCACCGATATTGGACTTAAAGATGAAGTACCAATGTGCTGATTCAAGGCCAGCTA
2457146 CATTGGACTTAAAGA
131 CATTGGACTTAAAGA
*
2457161 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGGTGCCAAAGGCGCCAAT
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAA---GAC-AAGGCGCCAAT
*
2457226 ATGCTGATTCAAGGCCACCGATATTGGACTTAAAGATGAAGTGCCAATGTGCTGATTCAAGGCCA
62 ATGCTGATTCAAGGCCACCGATATTGGACTTAAAGATGAAGTACCAATGTGCTGATTCAAGGCCA
2457291 GCTACATTGGACTTAAAGA
127 GCTACATTGGACTTAAAGA
* * * *
2457310 -CAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAA
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAA
2457356 AGAAGACGCC
Statistics
Matches: 173, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
145 40 0.23
148 44 0.25
149 89 0.51
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (145 bp):
TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGACAAGGCGCCAATATGC
TGATTCAAGGCCACCGATATTGGACTTAAAGATGAAGTACCAATGTGCTGATTCAAGGCCAGCTA
CATTGGACTTAAAGA
Found at i:2457339 original size:48 final size:48
Alignment explanation
Indices: 2457057--2457355 Score: 366
Period size: 48 Copynumber: 6.1 Consensus size: 48
2457047 TGACATTAGT
* *
2457057 CTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGG
1 CTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
*** * * *
2457105 CTTAAAGGTGAGGTACCAATGTGCTGATTCAAGGCCAGCTACATTGGA
1 CTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
* * *
2457153 CTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGA
1 CTTAAAGA-CAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
* * * *
2457202 CTTAAAGGTGCCAAAGGCGCCAATATGCTGATTCAAGGCCACCGATATTGGA
1 CTTAAA---GAC-AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
* * *
2457254 CTTAAAGATGAA-GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
1 CTTAAAGA-CAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
*
2457302 CTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGG
1 CTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
2457350 CTTAAA
1 CTTAAA
2457356 AGAAGACGCC
Statistics
Matches: 212, Mismatches: 32, Indels: 14
0.82 0.12 0.05
Matches are distributed among these distances:
47 2 0.01
48 125 0.59
49 42 0.20
52 43 0.20
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (48 bp):
CTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
Found at i:2457403 original size:31 final size:31
Alignment explanation
Indices: 2457363--2457540 Score: 183
Period size: 31 Copynumber: 5.8 Consensus size: 31
2457353 AAAAGAAGAC
*
2457363 GCCACCAACTTGTGTGGGCTTTTGAAAGGTTT
1 GCCACCAACTTGTGTGGGC-TTTGAAAGGGTT
*
2457395 G-CATCAACTTGTGT--GCTTTTG-AA-GGTT
1 GCCACCAACTTGTGTGGGC-TTTGAAAGGGTT
** * *
2457422 GCCACTGAC-T-TGTGGGCATTG-AGGGGATT
1 GCCACCAACTTGTGTGGGCTTTGAAAGGG-TT
*
2457451 GCCACCAACTTGTGTGGGCTTTGAAGGGGTT
1 GCCACCAACTTGTGTGGGCTTTGAAAGGGTT
*
2457482 GCCACCGACTTGTGTGGGCTTTAGAGAAGGGTT
1 GCCACCAACTTGTGTGGGCTTT-GA-AAGGGTT
2457515 GCCACCAACTTGTGTGGGCTTTGAAA
1 GCCACCAACTTGTGTGGGCTTTGAAA
2457541 AGGTGAAAGA
Statistics
Matches: 123, Mismatches: 13, Indels: 21
0.78 0.08 0.13
Matches are distributed among these distances:
26 3 0.02
27 9 0.07
28 10 0.08
29 16 0.13
30 1 0.01
31 47 0.38
32 10 0.08
33 27 0.22
ACGTcount: A:0.19, C:0.19, G:0.32, T:0.31
Consensus pattern (31 bp):
GCCACCAACTTGTGTGGGCTTTGAAAGGGTT
Found at i:2457615 original size:34 final size:34
Alignment explanation
Indices: 2457571--2458111 Score: 251
Period size: 34 Copynumber: 16.7 Consensus size: 34
2457561 TTGTGGACGT
* * * ** *
2457571 AAAAGGGTGCCACGAAGTTATGCACTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
*
2457605 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
2457639 AAAAG-GTGCCACGGAGTTGTGGGCTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
*
2457672 AAAAGAGTGCCACGGAGTTGTGGGCTTAATAGGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAA-AAGGA
* * *
2457707 AAAAGGGTGCCACGGAGTCGTGGACTTAAAA-G-
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* *
2457739 ----G-GTGCCACGGGGTTGTGGGCTT-----TA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
*
2457763 AAAAGAGTGCCACGGAGTTGTGGACTTTGAAAA-GA
1 AAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGGA
* * *
2457798 AAAA-TGTGCCATGGAGTTGTGGACTTTGAAAA-GA
1 AAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGGA
** * **
2457832 AAAAG-GTGCCACGGAGTCATGGACTTTGAA-G-
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* * * **
2457863 AAAAGA-TGCCACTGAGTCGTGGACTT-TGA-GA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* * *
2457894 CAAA-A-TGCCACTGAGTTGTGGACTTTGAAAA--A
1 AAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGGA
* *
2457926 AAAAG-GTGCCACAGAGTTGTGGACTTTGAAAA-GA
1 AAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGGA
* ** **
2457960 AAAAG-GTGCCACGGAGTCGTGGATTTTGAA-G-
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* * * **
2457991 AAAAGA-TGCCACTGAGTCGTGGACTT-TGA-GA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* * *
2458022 CAAA-A-TGCCACTGAGTTGTGGACTTTGAAAA-GA
1 AAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGGA
* **
2458055 AAAAG-GTGCCACGGAGTTGTGGACTTTGAAAAAAA
1 AAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGGA
*
2458090 AAAAG-GTGCCACGGAGTCGTGG
1 AAAAGAGTGCCACGGAGTTGTGG
2458112 ACTTTGAAGA
Statistics
Matches: 422, Mismatches: 54, Indels: 61
0.79 0.10 0.11
Matches are distributed among these distances:
27 18 0.04
28 2 0.00
29 17 0.04
30 42 0.10
31 56 0.13
32 10 0.02
33 69 0.16
34 151 0.36
35 57 0.14
ACGTcount: A:0.34, C:0.14, G:0.32, T:0.21
Consensus pattern (34 bp):
AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
Found at i:2457745 original size:27 final size:28
Alignment explanation
Indices: 2457706--2457789 Score: 116
Period size: 27 Copynumber: 3.0 Consensus size: 28
2457696 CTTAATAGGG
*
2457706 AAAAAGGGTGCCACGGAGTCGTGGACTT
1 AAAAAGGGTGCCACGGAGTTGTGGACTT
* *
2457734 -AAAAGGGTGCCACGGGGTTGTGGGCTTT
1 AAAAAGGGTGCCACGGAGTTGTGGAC-TT
*
2457762 AAAAAGAGTGCCACGGAGTTGTGGACTT
1 AAAAAGGGTGCCACGGAGTTGTGGACTT
2457790 TGAAAAGAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
27 22 0.46
28 4 0.08
29 22 0.46
ACGTcount: A:0.26, C:0.15, G:0.37, T:0.21
Consensus pattern (28 bp):
AAAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:2457904 original size:30 final size:30
Alignment explanation
Indices: 2457770--2458212 Score: 394
Period size: 30 Copynumber: 13.9 Consensus size: 30
2457760 TTAAAAAGAG
* *
2457770 TGCCACGGAGTTGTGGACTTTGAAAAGAAAAA
1 TGCCACTGAGTCGTGGACTTTG--AAGAAAAA
*
2457802 TGTGCCA-TGGAGTTGTGGACTTTGAAAAGAAAAA
1 --TGCCACT-GAGTCGTGGACTTTG--AAGAAAAA
* *
2457836 GGTGCCACGGAGTCATGGACTTTGAAGAAAAGA
1 --TGCCACTGAGTCGTGGACTTTGAAGAAAA-A
2457869 TGCCACTGAGTCGTGGACTTTG-AGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGA-AAAA
* *
2457899 TGCCACTGAGTTGTGGACTTTGAAAAAAAAA
1 TGCCACTGAGTCGTGGACTTTG-AAGAAAAA
* *
2457930 GGTGCCACAGAGTTGTGGACTTTGAAAAGAAAAA
1 --TGCCACTGAGTCGTGGACTTTG--AAGAAAAA
* *
2457964 GGTGCCACGGAGTCGTGGATTTTGAAGAAAAGA
1 --TGCCACTGAGTCGTGGACTTTGAAGAAAA-A
2457997 TGCCACTGAGTCGTGGACTTTG-AGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGA-AAAA
*
2458027 TGCCACTGAGTTGTGGACTTTGAAAAGAAAAA
1 TGCCACTGAGTCGTGGACTTTG--AAGAAAAA
* * *
2458059 GGTGCCACGGAGTTGTGGACTTTGAAAAAAAAAAA
1 --TGCCACTGAGTCGTGGACTTTG---AAGAAAAA
*
2458094 GGTGCCACGGAGTCGTGGACTTTGAAGAAAAGA
1 --TGCCACTGAGTCGTGGACTTTGAAGAAAA-A
2458127 TGCCACTGAGTCGTGGACTTTG-AGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGA-AAAA
* *
2458157 TGCCACTGAGTTGTGGACTTTG-GGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGA-AAAA
2458187 TGCCACTGAGTCGTGGACTTT-AAGAA
1 TGCCACTGAGTCGTGGACTTTGAAGAA
2458213 GGTATTTGAA
Statistics
Matches: 363, Mismatches: 26, Indels: 45
0.84 0.06 0.10
Matches are distributed among these distances:
29 1 0.00
30 104 0.29
31 74 0.20
32 26 0.07
33 27 0.07
34 99 0.27
35 32 0.09
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAA
Found at i:2457951 original size:128 final size:129
Alignment explanation
Indices: 2457645--2458178 Score: 759
Period size: 128 Copynumber: 4.2 Consensus size: 129
2457635 AAGAAAAAGG
* * * *
2457645 TGCCACGGAGTTGTGGGC-TT-AAAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT-AATAGGG
1 TGCCACTGAGTTGTGGACTTTGAAAA-GAAAAAG-GTGCCACGGAGTTGTGGACTTTGAA-A-AG
* * * * * *
2457706 AAAAAGGGTGCCACGGAGTCGTGGAC-TT--A-AAAGGGTGCCACGGGGTTGTGGGCTTT-A-A-
62 AAAAA-GGTGCCACGGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGAC
2457764 AAAGA
126 AAA-A
* * *
2457769 GTGCCACGGAGTTGTGGACTTTGAAAAGAAAAATGTGCCATGGAGTTGTGGACTTTGAAAAGAAA
1 -TGCCACTGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAA
*
2457834 AAGGTGCCACGGAGTCATGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
65 AAGGTGCCACGGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
*
2457899 TGCCACTGAGTTGTGGACTTTGAAAA-AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAGAAAA
1 TGCCACTGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAA
*
2457963 AGGTGCCACGGAGTCGTGGATTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
66 AGGTGCCACGGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
*
2458027 TGCCACTGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAAAAAA
1 TGCCACTGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTG-AAAAGAAA
2458092 AAGGTGCCACGGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
65 AAGGTGCCACGGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
2458157 TGCCACTGAGTTGTGGACTTTG
1 TGCCACTGAGTTGTGGACTTTG
2458179 GGACAAAATG
Statistics
Matches: 375, Mismatches: 21, Indels: 21
0.90 0.05 0.05
Matches are distributed among these distances:
124 19 0.05
125 42 0.11
126 11 0.03
127 7 0.02
128 144 0.38
129 54 0.14
130 95 0.25
131 3 0.01
ACGTcount: A:0.32, C:0.14, G:0.31, T:0.22
Consensus pattern (129 bp):
TGCCACTGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAA
AGGTGCCACGGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
Found at i:2459188 original size:17 final size:17
Alignment explanation
Indices: 2459168--2459201 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2459158 TTCTTCTTCT
*
2459168 TTTTTTTTCCTTTTTTG
1 TTTTGTTTCCTTTTTTG
*
2459185 TTTTGTTTCTTTTTTTG
1 TTTTGTTTCCTTTTTTG
2459202 GAAAAGAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.09, G:0.09, T:0.82
Consensus pattern (17 bp):
TTTTGTTTCCTTTTTTG
Found at i:2459463 original size:8 final size:8
Alignment explanation
Indices: 2459448--2459488 Score: 57
Period size: 8 Copynumber: 5.1 Consensus size: 8
2459438 CTTTTTTCTG
2459448 TGTTTTTT
1 TGTTTTTT
*
2459456 TATTTTTT
1 TGTTTTTT
2459464 T-TGTTTTT
1 TGT-TTTTT
2459472 TGTTTTTT
1 TGTTTTTT
2459480 TGTTTTTT
1 TGTTTTTT
2459488 T
1 T
2459489 TTTCATCACT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
7 1 0.03
8 28 0.93
9 1 0.03
ACGTcount: A:0.02, C:0.00, G:0.10, T:0.88
Consensus pattern (8 bp):
TGTTTTTT
Found at i:2459477 original size:15 final size:14
Alignment explanation
Indices: 2459452--2459491 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 14
2459442 TTTCTGTGTT
2459452 TTTTTATTTTTTTTG
1 TTTTT-TTTTTTTTG
2459467 TTTTTTGTTTTTTTG
1 TTTTTT-TTTTTTTG
2459482 TTTTTTTTTT
1 TTTTTTTTTT
2459492 CATCACTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.21
15 19 0.79
ACGTcount: A:0.03, C:0.00, G:0.07, T:0.90
Consensus pattern (14 bp):
TTTTTTTTTTTTTG
Found at i:2464518 original size:52 final size:52
Alignment explanation
Indices: 2464433--2464581 Score: 235
Period size: 52 Copynumber: 2.9 Consensus size: 52
2464423 CGAAATATGA
*
2464433 AAATTTGCCTGCATGTATCAATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
* *
2464485 AAGTTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
*** *
2464537 AAATTTGCCTGCATGTATCGATACAAAGATTAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACA
2464582 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 88 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:2464588 original size:13 final size:13
Alignment explanation
Indices: 2464570--2464594 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2464560 CAAAGATTAG
2464570 TGTATCGATACAA
1 TGTATCGATACAA
2464583 TGTATCGATACA
1 TGTATCGATACA
2464595 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2464674 original size:13 final size:14
Alignment explanation
Indices: 2464651--2464680 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
2464641 TCGATACAAA
2464651 ACATATGTATCGAT
1 ACATATGTATCGAT
2464665 ACAT-TGTATCGAT
1 ACATATGTATCGAT
2464678 ACA
1 ACA
2464681 ACACTTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (14 bp):
ACATATGTATCGAT
Found at i:2464675 original size:32 final size:33
Alignment explanation
Indices: 2464632--2464700 Score: 104
Period size: 32 Copynumber: 2.1 Consensus size: 33
2464622 GGCAGTAGCT
2464632 TACATTATATCGATACAAAAC-ATATGTATCGA
1 TACATTATATCGATACAAAACTATATGTATCGA
* * *
2464664 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTATATCGATACAAAACTATATGTATCGA
2464697 TACA
1 TACA
2464701 AATCGTTGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 19 0.58
33 14 0.42
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.33
Consensus pattern (33 bp):
TACATTATATCGATACAAAACTATATGTATCGA
Found at i:2465798 original size:20 final size:19
Alignment explanation
Indices: 2465775--2465827 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
2465765 CATTTCAAGC
*
2465775 ATGTATTGATACATTCACTT
1 ATGTATCGATACATT-ACTT
*
2465795 ATGTATCGATACATTGCTT
1 ATGTATCGATACATTACTT
2465814 ATTGTATCGATACA
1 A-TGTATCGATACA
2465828 AATTGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 4 0.13
20 26 0.87
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (19 bp):
ATGTATCGATACATTACTT
Found at i:2466276 original size:29 final size:29
Alignment explanation
Indices: 2466239--2466349 Score: 98
Period size: 31 Copynumber: 3.6 Consensus size: 29
2466229 TGCTTTTGAA
*
2466239 GGTTGCCACTGACTTGTGGGCATTG-AGG
1 GGTTGCCACCGACTTGTGGGCATTGAAGG
* *
2466267 GGATTGCCACCAACTTGTGTGGGCTTTGAAGG
1 GG-TTGCCACCGAC-T-TGTGGGCATTGAAGG
* *
2466299 GGTTGCCACCGACTTGTGTGGGCTTTAGAGAAG
1 GGTTGCCACCGAC-T-TGTGGGCATT-GA-AGG
*
2466332 GGTTGCCACCAACTTGTG
1 GGTTGCCACCGACTTGTG
2466350 TGGGCTTTGA
Statistics
Matches: 71, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.03
29 9 0.13
30 1 0.01
31 37 0.52
32 8 0.11
33 14 0.20
ACGTcount: A:0.17, C:0.20, G:0.35, T:0.28
Consensus pattern (29 bp):
GGTTGCCACCGACTTGTGGGCATTGAAGG
Found at i:2466305 original size:31 final size:31
Alignment explanation
Indices: 2466253--2466360 Score: 155
Period size: 31 Copynumber: 3.4 Consensus size: 31
2466243 GCCACTGACT
*
2466253 TGTGGGCATTG-AGGGGATTGCCACCAACTTG
1 TGTGGGCTTTGAAGGGG-TTGCCACCAACTTG
*
2466284 TGTGGGCTTTGAAGGGGTTGCCACCGACTTG
1 TGTGGGCTTTGAAGGGGTTGCCACCAACTTG
*
2466315 TGTGGGCTTTAGAGAAGGGTTGCCACCAACTTG
1 TGTGGGCTTT-GA-AGGGGTTGCCACCAACTTG
2466348 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
2466361 AAGGTGAAAG
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
31 34 0.49
32 9 0.13
33 27 0.39
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.29
Consensus pattern (31 bp):
TGTGGGCTTTGAAGGGGTTGCCACCAACTTG
Found at i:2466350 original size:64 final size:59
Alignment explanation
Indices: 2466198--2466360 Score: 176
Period size: 64 Copynumber: 2.7 Consensus size: 59
2466188 TGTGGGCTTT
* * *
2466198 TGGGCTTTTGA-AAGGTTTG-CATCAACTTGTGT--GCTTTTGAAGGTTGCCACTGACTTG
1 TGGGC-TTTGAGAAGGGTTGCCACCAACTTGTGTGGGC-TTTGAAGGTTGCCACCGACTTG
*
2466255 TGGGCATTGAG--GGGATTGCCACCAACTTGTGTGGGCTTTGAAGGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAGAAGGG-TTGCCACCAACTTGTGTGGGCTTTGAA--GGTTGCCACCGAC-T-TG
2466317 TGGGCTTTAGAGAAGGGTTGCCACCAACTTGTGTGGGCTTTGAA
1 TGGGCTTT-GAGAAGGGTTGCCACCAACTTGTGTGGGCTTTGAA
2466361 AAGGTGAAAG
Statistics
Matches: 89, Mismatches: 5, Indels: 17
0.80 0.05 0.15
Matches are distributed among these distances:
55 2 0.02
56 7 0.08
57 17 0.19
58 6 0.07
59 2 0.02
60 12 0.13
61 1 0.01
62 9 0.10
63 3 0.03
64 27 0.30
65 3 0.03
ACGTcount: A:0.18, C:0.17, G:0.33, T:0.32
Consensus pattern (59 bp):
TGGGCTTTGAGAAGGGTTGCCACCAACTTGTGTGGGCTTTGAAGGTTGCCACCGACTTG
Found at i:2466436 original size:34 final size:33
Alignment explanation
Indices: 2466392--2467033 Score: 492
Period size: 34 Copynumber: 20.0 Consensus size: 33
2466382 TTGTGGACGT
* * *
2466392 AAAAGGGTGCCACGAAGTTGTGGACTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTTGAA-GA
* **
2466426 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGACTT-TGAAGA
* **
2466460 AAAAG-GTGCCACGGAGTTGTGGGCTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTTGAA-GA
* *
2466493 AAAAGAGTGCCACGGAGTTGTGGGCTTAAT-AGGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTT--TGA-AGA
* *
2466528 AAAAGGGTGCCACGGAGTCGTGGAC-TT-----
1 AAAAGAGTGCCACGGAGTTGTGGACTTTGAAGA
* * *
2466555 AAAAGGGTGCCACGGGGTTGTGGGCTTT----A
1 AAAAGAGTGCCACGGAGTTGTGGACTTTGAAGA
2466584 AAAAGAGTGCCACGGAGTTGTGGACTTTGAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTTG--AAGA
* *
2466619 AAAA-TGTGCCATGGAGTTGTGGACTTTGAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTTG--AAGA
**
2466653 AAAAG-GTGCCACGGAGTCATGGACTTTGAAG-
1 AAAAGAGTGCCACGGAGTTGTGGACTTTGAAGA
* * *
2466684 AAGAGA-TGCCACTGAGTCGTGGACTTTG-AGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTTGAAGA
* *
2466715 CAAA-A-TGCCACTGAGTTGTGGACTTTGAA-A
1 AAAAGAGTGCCACGGAGTTGTGGACTTTGAAGA
* *
2466745 AAAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAGA
1 AAAAGA-GTGCCACGGAGTTGTGGACTTTG--AAGA
*
2466781 AAAAG-GTGCCACGGAGTCGTGGACTTTGAAG-
1 AAAAGAGTGCCACGGAGTTGTGGACTTTGAAGA
* *
2466812 AAAAGA-TGCCACTGAGTCGTGGACTTTG-AGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTTGAAGA
* *
2466843 CAAA-A-TGCCACTGAGTTGTGGACTTTGAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTTG--AAGA
*
2466876 AAAAG-GTGCCACGGAGTTGTGGACTTTGAAAAA
1 AAAAGAGTGCCACGGAGTTGTGGACTTTG-AAGA
* *
2466909 AAAAAAGGTGCCACGGAGTCGTGGACTTTGAAG-
1 AAAAGA-GTGCCACGGAGTTGTGGACTTTGAAGA
* *
2466942 AAAAGA-TGCCACTGAGTCGTGGACTTTG-AGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTTGAAGA
* * *
2466973 CAAA-A-TGCCACTGAGTTGTGGACTTTG-GGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTTGAAGA
* * *
2467003 CAAA-A-TGCCACTGAGTCGTGGACTTT-AAGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTTGAAGA
2467033 A
1 A
2467034 GGTATTTGAA
Statistics
Matches: 525, Mismatches: 48, Indels: 74
0.81 0.07 0.11
Matches are distributed among these distances:
27 22 0.04
28 2 0.00
29 25 0.05
30 105 0.20
31 81 0.15
32 11 0.02
33 68 0.13
34 149 0.28
35 57 0.11
36 5 0.01
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.21
Consensus pattern (33 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTTGAAGA
Found at i:2466559 original size:129 final size:129
Alignment explanation
Indices: 2466392--2466999 Score: 691
Period size: 128 Copynumber: 4.7 Consensus size: 129
2466382 TTGTGGACGT
* * * * * * *
2466392 AAAAGGGTGCCACGAAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAA
1 AAAAAGGTGCCACGGAGTCGTGGACTTTGAA-G-AAGAGA-TGCCACGGAGTCGTGGACTT--AA
* *
2466457 AGA-AAAAGGTGCCACGGAGTTGTGGGC-TT-AAAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-
61 AGACAAAA--TGCCACGGAGTTGTGGACTTTGAAAA-GAAAAAG-GTGCCACGGAGTTGTGGACT
*
2466518 TT-AATAGGG
122 TTGAA-A-AG
* * * *
2466527 AAAAAGGGTGCCACGGAGTCGTGGAC-TT-AA-AAG-GGTGCCACGGGGTTGTGGGCTTTAAA-A
1 AAAAA-GGTGCCACGGAGTCGTGGACTTTGAAGAAGAGATGCCACGGAGTCGTGGAC-TTAAAGA
* * * *
2466587 -AGAGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAATGTGCCATGGAGTTGTGGACTTTGAAAA
64 CAAAATGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAA
2466651 G
129 G
* * **
2466652 AAAAAGGTGCCACGGAGTCATGGACTTTGAAGAAGAGATGCCACTGAGTCGTGGACTTTGAGACA
1 AAAAAGGTGCCACGGAGTCGTGGACTTTGAAGAAGAGATGCCACGGAGTCGTGGACTTAAAGACA
* *
2466717 AAATGCCACTGAGTTGTGGACTTTGAAAA-AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAG
66 AAATGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAG
* * **
2466780 AAAAAGGTGCCACGGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGACA
1 AAAAAGGTGCCACGGAGTCGTGGACTTTGAAGAAGAGATGCCACGGAGTCGTGGACTTAAAGACA
* *
2466845 AAATGCCACTGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAAA
66 AAATGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTG-AAAAG
* * **
2466910 AAAAAGGTGCCACGGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGACA
1 AAAAAGGTGCCACGGAGTCGTGGACTTTGAAGAAGAGATGCCACGGAGTCGTGGACTTAAAGACA
*
2466975 AAATGCCACTGAGTTGTGGACTTTG
66 AAATGCCACGGAGTTGTGGACTTTG
2467000 GGACAAAATG
Statistics
Matches: 427, Mismatches: 32, Indels: 33
0.87 0.07 0.07
Matches are distributed among these distances:
124 19 0.04
125 42 0.10
126 13 0.03
127 15 0.04
128 142 0.33
129 72 0.17
130 97 0.23
131 2 0.00
134 2 0.00
135 5 0.01
136 18 0.04
ACGTcount: A:0.33, C:0.14, G:0.32, T:0.21
Consensus pattern (129 bp):
AAAAAGGTGCCACGGAGTCGTGGACTTTGAAGAAGAGATGCCACGGAGTCGTGGACTTAAAGACA
AAATGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAG
Found at i:2466566 original size:27 final size:28
Alignment explanation
Indices: 2466527--2466610 Score: 116
Period size: 27 Copynumber: 3.0 Consensus size: 28
2466517 CTTAATAGGG
*
2466527 AAAAAGGGTGCCACGGAGTCGTGGACTT
1 AAAAAGGGTGCCACGGAGTTGTGGACTT
* *
2466555 -AAAAGGGTGCCACGGGGTTGTGGGCTTT
1 AAAAAGGGTGCCACGGAGTTGTGGAC-TT
*
2466583 AAAAAGAGTGCCACGGAGTTGTGGACTT
1 AAAAAGGGTGCCACGGAGTTGTGGACTT
2466611 TGAAAAGAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
27 22 0.46
28 4 0.08
29 22 0.46
ACGTcount: A:0.26, C:0.15, G:0.37, T:0.21
Consensus pattern (28 bp):
AAAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:2466725 original size:30 final size:30
Alignment explanation
Indices: 2466591--2467033 Score: 394
Period size: 30 Copynumber: 13.9 Consensus size: 30
2466581 TTAAAAAGAG
* *
2466591 TGCCACGGAGTTGTGGACTTTGAAAAGAAAAA
1 TGCCACTGAGTCGTGGACTTTG--AAGAAAAA
*
2466623 TGTGCCA-TGGAGTTGTGGACTTTGAAAAGAAAAA
1 --TGCCACT-GAGTCGTGGACTTTG--AAGAAAAA
* * *
2466657 GGTGCCACGGAGTCATGGACTTTGAAGAAGAGA
1 --TGCCACTGAGTCGTGGACTTTGAAGAA-AAA
2466690 TGCCACTGAGTCGTGGACTTTG-AGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGA-AAAA
* *
2466720 TGCCACTGAGTTGTGGACTTTGAAAAAAAAA
1 TGCCACTGAGTCGTGGACTTTG-AAGAAAAA
* *
2466751 GGTGCCACAGAGTTGTGGACTTTGAAAAGAAAAA
1 --TGCCACTGAGTCGTGGACTTTG--AAGAAAAA
*
2466785 GGTGCCACGGAGTCGTGGACTTTGAAGAAAAGA
1 --TGCCACTGAGTCGTGGACTTTGAAGAAAA-A
2466818 TGCCACTGAGTCGTGGACTTTG-AGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGA-AAAA
*
2466848 TGCCACTGAGTTGTGGACTTTGAAAAGAAAAA
1 TGCCACTGAGTCGTGGACTTTG--AAGAAAAA
* * *
2466880 GGTGCCACGGAGTTGTGGACTTTGAAAAAAAAAAA
1 --TGCCACTGAGTCGTGGACTTTG---AAGAAAAA
*
2466915 GGTGCCACGGAGTCGTGGACTTTGAAGAAAAGA
1 --TGCCACTGAGTCGTGGACTTTGAAGAAAA-A
2466948 TGCCACTGAGTCGTGGACTTTG-AGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGA-AAAA
* *
2466978 TGCCACTGAGTTGTGGACTTTG-GGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGA-AAAA
2467008 TGCCACTGAGTCGTGGACTTT-AAGAA
1 TGCCACTGAGTCGTGGACTTTGAAGAA
2467034 GGTATTTGAA
Statistics
Matches: 363, Mismatches: 26, Indels: 45
0.84 0.06 0.10
Matches are distributed among these distances:
29 1 0.00
30 105 0.29
31 73 0.20
32 24 0.07
33 28 0.08
34 100 0.28
35 32 0.09
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAA
Found at i:2466769 original size:128 final size:129
Alignment explanation
Indices: 2466466--2466999 Score: 759
Period size: 128 Copynumber: 4.2 Consensus size: 129
2466456 AAGAAAAAGG
* * * *
2466466 TGCCACGGAGTTGTGGGC-TT-AAAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT-AATAGGG
1 TGCCACTGAGTTGTGGACTTTGAAAA-GAAAAAG-GTGCCACGGAGTTGTGGACTTTGAA-A-AG
* * * * * *
2466527 AAAAAGGGTGCCACGGAGTCGTGGAC-TT--A-AAAGGGTGCCACGGGGTTGTGGGCTTT-A-A-
62 AAAAA-GGTGCCACGGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGAC
2466585 AAAGA
126 AAA-A
* * *
2466590 GTGCCACGGAGTTGTGGACTTTGAAAAGAAAAATGTGCCATGGAGTTGTGGACTTTGAAAAGAAA
1 -TGCCACTGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAA
* *
2466655 AAGGTGCCACGGAGTCATGGACTTTGAAGAAGAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
65 AAGGTGCCACGGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
*
2466720 TGCCACTGAGTTGTGGACTTTGAAAA-AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAGAAAA
1 TGCCACTGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAA
2466784 AGGTGCCACGGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
66 AGGTGCCACGGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
*
2466848 TGCCACTGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAAAAAA
1 TGCCACTGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTG-AAAAGAAA
2466913 AAGGTGCCACGGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
65 AAGGTGCCACGGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
2466978 TGCCACTGAGTTGTGGACTTTG
1 TGCCACTGAGTTGTGGACTTTG
2467000 GGACAAAATG
Statistics
Matches: 375, Mismatches: 21, Indels: 21
0.90 0.05 0.05
Matches are distributed among these distances:
124 19 0.05
125 42 0.11
126 11 0.03
127 7 0.02
128 143 0.38
129 54 0.14
130 96 0.26
131 3 0.01
ACGTcount: A:0.32, C:0.14, G:0.31, T:0.22
Consensus pattern (129 bp):
TGCCACTGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGAAAA
AGGTGCCACGGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
Found at i:2468009 original size:17 final size:17
Alignment explanation
Indices: 2467989--2468022 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2467979 TTCTTCTTCT
*
2467989 TTTTTTTTCCTTTTTTG
1 TTTTGTTTCCTTTTTTG
*
2468006 TTTTGTTTCTTTTTTTG
1 TTTTGTTTCCTTTTTTG
2468023 GAAAAGAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.09, G:0.09, T:0.82
Consensus pattern (17 bp):
TTTTGTTTCCTTTTTTG
Found at i:2468284 original size:8 final size:8
Alignment explanation
Indices: 2468269--2468310 Score: 57
Period size: 8 Copynumber: 5.1 Consensus size: 8
2468259 CTTTTTTCTG
2468269 TGTTTTTT
1 TGTTTTTT
*
2468277 TATTTTTT
1 TGTTTTTT
*
2468285 TTTGTTTTT
1 TGT-TTTTT
2468294 TGTTTTTT
1 TGTTTTTT
2468302 TGTTTTTT
1 TGTTTTTT
2468310 T
1 T
2468311 TTTCATCACT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
8 23 0.77
9 7 0.23
ACGTcount: A:0.02, C:0.00, G:0.10, T:0.88
Consensus pattern (8 bp):
TGTTTTTT
Found at i:2468299 original size:15 final size:14
Alignment explanation
Indices: 2468274--2468313 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 14
2468264 TTCTGTGTTT
2468274 TTTTATTTTTTTTTG
1 TTTT-TTTTTTTTTG
2468289 TTTTTTGTTTTTTTG
1 TTTTTT-TTTTTTTG
2468304 TTTTTTTTTT
1 TTTTTTTTTT
2468314 CATCACTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.03, C:0.00, G:0.07, T:0.90
Consensus pattern (14 bp):
TTTTTTTTTTTTTG
Found at i:2468302 original size:20 final size:19
Alignment explanation
Indices: 2468260--2468313 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
2468250 CCTTTGCACC
*
2468260 TTTTTTCTGTGTTTTTTTAT
1 TTTTTTTTGT-TTTTTTTAT
2468280 TTTTTTTTGTTTTTTGTT-T
1 TTTTTTTTGTTTTTT-TTAT
2468299 TTTTGTTTT-TTTTTT
1 TTTT-TTTTGTTTTTT
2468314 CATCACTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.02, C:0.02, G:0.09, T:0.87
Consensus pattern (19 bp):
TTTTTTTTGTTTTTTTTAT
Found at i:2468326 original size:1 final size:1
Alignment explanation
Indices: 2468271--2468313 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
2468261 TTTTTCTGTG
* * * *
2468271 TTTTTTTATTTTTTTTTGTTTTTTGTTTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2468314 CATCACTTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.02, C:0.00, G:0.07, T:0.91
Consensus pattern (1 bp):
T
Found at i:2473340 original size:52 final size:52
Alignment explanation
Indices: 2473255--2473403 Score: 235
Period size: 52 Copynumber: 2.9 Consensus size: 52
2473245 CGAAATATGA
*
2473255 AAATTTGCCTGCATGTATCAATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
* *
2473307 AAGTTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
*** *
2473359 AAATTTGCCTGCATGTATCGATACAAAGATTAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACA
2473404 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 88 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:2473410 original size:13 final size:13
Alignment explanation
Indices: 2473392--2473416 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2473382 CAAAGATTAG
2473392 TGTATCGATACAA
1 TGTATCGATACAA
2473405 TGTATCGATACA
1 TGTATCGATACA
2473417 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2473496 original size:13 final size:14
Alignment explanation
Indices: 2473473--2473502 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
2473463 TCGATACAAA
2473473 ACATATGTATCGAT
1 ACATATGTATCGAT
2473487 ACAT-TGTATCGAT
1 ACATATGTATCGAT
2473500 ACA
1 ACA
2473503 ACACTTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (14 bp):
ACATATGTATCGAT
Found at i:2473497 original size:32 final size:33
Alignment explanation
Indices: 2473454--2473522 Score: 104
Period size: 32 Copynumber: 2.1 Consensus size: 33
2473444 GGCAGTAGCT
2473454 TACATTATATCGATACAAAAC-ATATGTATCGA
1 TACATTATATCGATACAAAACTATATGTATCGA
* * *
2473486 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTATATCGATACAAAACTATATGTATCGA
2473519 TACA
1 TACA
2473523 AATCGTTGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 19 0.58
33 14 0.42
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.33
Consensus pattern (33 bp):
TACATTATATCGATACAAAACTATATGTATCGA
Found at i:2474620 original size:20 final size:19
Alignment explanation
Indices: 2474597--2474649 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
2474587 CATTTCAAGC
*
2474597 ATGTATTGATACATTCACTT
1 ATGTATCGATACATT-ACTT
*
2474617 ATGTATCGATACATTGCTT
1 ATGTATCGATACATTACTT
2474636 ATTGTATCGATACA
1 A-TGTATCGATACA
2474650 AATTGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 4 0.13
20 26 0.87
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (19 bp):
ATGTATCGATACATTACTT
Found at i:2476591 original size:48 final size:48
Alignment explanation
Indices: 2476498--2476591 Score: 111
Period size: 48 Copynumber: 2.0 Consensus size: 48
2476488 CTTATTTCAT
* * *
2476498 ATAATCTAAGGACCATTTTGCATTTTTCATATGTTTTAGGATATTTTA
1 ATAATCTAAGGACCATTTTACATATTTCATATGTTTAAGGATATTTTA
* *
2476546 ATAATCTAGGGACCATTTTACA-ATTTCATTCAT-TTTAAGGCTATTT
1 ATAATCTAAGGACCATTTTACATATTTCA-T-ATGTTTAAGGATATTT
2476592 AGGTTACTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
47 5 0.13
48 32 0.82
49 2 0.05
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.46
Consensus pattern (48 bp):
ATAATCTAAGGACCATTTTACATATTTCATATGTTTAAGGATATTTTA
Found at i:2476700 original size:59 final size:58
Alignment explanation
Indices: 2476625--2476760 Score: 168
Period size: 59 Copynumber: 2.3 Consensus size: 58
2476615 CCATTTTAGT
*
2476625 ATTTCCATGTATTTTAAG-ATCTTCTAGGTTATTTCATGCATATT-AGAGACTATTTAACA
1 ATTTCCATGTATTTTAAGTAT-TT-TAGGTTATTTCATGAATATTGA-AGACTATTTAACA
* * * *
2476684 ATTTCCTTGCATTTTAAAGTATTTTAGGTTATTTCATGAATATTGAAGTCTATTTAGCA
1 ATTTCCATGTATTTT-AAGTATTTTAGGTTATTTCATGAATATTGAAGACTATTTAACA
*
2476743 ATTTTCATGTATTTTAAG
1 ATTTCCATGTATTTTAAG
2476761 GCTATTTAAG
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
58 3 0.05
59 55 0.83
60 6 0.09
61 2 0.03
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.47
Consensus pattern (58 bp):
ATTTCCATGTATTTTAAGTATTTTAGGTTATTTCATGAATATTGAAGACTATTTAACA
Found at i:2476766 original size:29 final size:29
Alignment explanation
Indices: 2476715--2476817 Score: 73
Period size: 29 Copynumber: 3.5 Consensus size: 29
2476705 TTTTAGGTTA
* * *
2476715 TTTCATGAATATTGAAGTCTATTTAGCAAT
1 TTTCATGTAT-TTTAAGGCTATTTAGCAAT
**
2476745 TTTCATGTATTTTAAGGCTATTTAAGTTAT
1 TTTCATGTATTTTAAGGCTATTT-AGCAAT
* * * *
2476775 TTT-ATGTAATTTAAGGATCATTTTGCATT
1 TTTCATGTATTTTAAGGCT-ATTTAGCAAT
* *
2476804 TTTTATGCATTTTA
1 TTTCATGTATTTTA
2476818 GGACCATTTA
Statistics
Matches: 57, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
29 29 0.51
30 28 0.49
ACGTcount: A:0.28, C:0.08, G:0.13, T:0.51
Consensus pattern (29 bp):
TTTCATGTATTTTAAGGCTATTTAGCAAT
Found at i:2476774 original size:59 final size:59
Alignment explanation
Indices: 2476625--2476776 Score: 166
Period size: 59 Copynumber: 2.6 Consensus size: 59
2476615 CCATTTTAGT
* * *
2476625 ATTTCCATGTATTTTAAGATCT-TCTAGGTTATTTCATGCATATTAGAGACTATTTAACA
1 ATTTCCATGTATTTTAAG-GCTATTTAGGTTATTTCATGAATATTAGAGACTATTTAACA
* * * * *
2476684 ATTTCCTTGCATTTTAAAG-TATTTTAGGTTATTTCATGAATATT-GAAGTCTATTTAGCA
1 ATTTCCATGTATTTTAAGGCTA-TTTAGGTTATTTCATGAATATTAG-AGACTATTTAACA
* *
2476743 ATTTTCATGTATTTTAAGGCTATTTAAGTTATTT
1 ATTTCCATGTATTTTAAGGCTATTTAGGTTATTT
2476777 TATGTAATTT
Statistics
Matches: 76, Mismatches: 13, Indels: 8
0.78 0.13 0.08
Matches are distributed among these distances:
57 1 0.01
58 1 0.01
59 72 0.95
60 2 0.03
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.48
Consensus pattern (59 bp):
ATTTCCATGTATTTTAAGGCTATTTAGGTTATTTCATGAATATTAGAGACTATTTAACA
Found at i:2477085 original size:47 final size:47
Alignment explanation
Indices: 2476988--2477085 Score: 108
Period size: 47 Copynumber: 2.1 Consensus size: 47
2476978 ATTTTATAAT
* * * * ** *
2476988 AATACCTTAAAATCTAGTCTAAAATCTTGTAAGAACTTTCATTTTGA
1 AATACCTTAAAACCAAGTCTAAAAGCTTGTAAGAACCTTCATGCTCA
*
2477035 AATACCTTAAAACCAAGTCT-AAAGCTATGTGAGAACCTTCATGCTCA
1 AATACCTTAAAACCAAGTCTAAAAGCT-TGTAAGAACCTTCATGCTCA
2477082 AATA
1 AATA
2477086 TGTCAATTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
46 5 0.12
47 37 0.88
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (47 bp):
AATACCTTAAAACCAAGTCTAAAAGCTTGTAAGAACCTTCATGCTCA
Found at i:2477608 original size:59 final size:59
Alignment explanation
Indices: 2477470--2477609 Score: 174
Period size: 59 Copynumber: 2.4 Consensus size: 59
2477460 CTAGGGTCAT
* * *
2477470 TTTAGC-ATTTCCATGTATTTTAGGATTTTTTAGGTTATTTCATGCATATTAAAGACTA
1 TTTAGCAATTTCCATGTATTTTAGGATTTTTTAGGTTATTTCATGAATATCAAAGACCA
* * * * *
2477528 TTTAGCAATTTCCGTGCATTTTAGGGTTTTTTAGGTTATTTCATGAATATCGAAGTCCA
1 TTTAGCAATTTCCATGTATTTTAGGATTTTTTAGGTTATTTCATGAATATCAAAGACCA
* **
2477587 TTTGGCAATTTTTATGTATTTTA
1 TTTAGCAATTTCCATGTATTTTA
2477610 TGGCCATTTA
Statistics
Matches: 68, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
58 6 0.09
59 62 0.91
ACGTcount: A:0.25, C:0.11, G:0.16, T:0.49
Consensus pattern (59 bp):
TTTAGCAATTTCCATGTATTTTAGGATTTTTTAGGTTATTTCATGAATATCAAAGACCA
Found at i:2483349 original size:31 final size:32
Alignment explanation
Indices: 2483314--2483389 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 32
2483304 AATACAGTAT
*
2483314 CAATTTAAGATTTTGCCTAAAG-GCAACATGA
1 CAATTTAAGATTTTGACTAAAGAGCAACATGA
* * *
2483345 CAATTTAAG-TTTTTATTCAAGAGCAACATGA
1 CAATTTAAGATTTTGACTAAAGAGCAACATGA
* *
2483376 CAGTTTAAAATTTT
1 CAATTTAAGATTTT
2483390 ATTTAAGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
30 8 0.22
31 25 0.68
32 4 0.11
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (32 bp):
CAATTTAAGATTTTGACTAAAGAGCAACATGA
Found at i:2483390 original size:31 final size:31
Alignment explanation
Indices: 2483336--2483401 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
2483326 TTGCCTAAAG
**
2483336 GCAACATGACAATTTAAGTTTTTATTCAAGA
1 GCAACATGACAATTTAAAATTTTATTCAAGA
* *
2483367 GCAACATGACAGTTTAAAATTTTATTTAAGA
1 GCAACATGACAATTTAAAATTTTATTCAAGA
2483398 GCAA
1 GCAA
2483402 TATGGTAGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (31 bp):
GCAACATGACAATTTAAAATTTTATTCAAGA
Found at i:2485214 original size:16 final size:16
Alignment explanation
Indices: 2485192--2485229 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
2485182 ATTGAGACTT
*
2485192 TAAAAATTA-ATAAAA
1 TAAAAAATATATAAAA
*
2485207 TAAAAAATATTTAAAA
1 TAAAAAATATATAAAA
2485223 TAAAAAA
1 TAAAAAA
2485230 ATTTGATCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
TAAAAAATATATAAAA
Found at i:2485233 original size:15 final size:16
Alignment explanation
Indices: 2485202--2485233 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2485192 TAAAAATTAA
2485202 TAAAATAAAAAATATT
1 TAAAATAAAAAATATT
2485218 TAAAATAAAAAA-ATT
1 TAAAATAAAAAATATT
2485233 T
1 T
2485234 GATCGAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
TAAAATAAAAAATATT
Found at i:2496026 original size:2 final size:2
Alignment explanation
Indices: 2496019--2496065 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
2496009 TCCTAATTGG
2496019 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
2496061 TC TC T
1 TC TC T
2496066 ATATATATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:2496070 original size:2 final size:2
Alignment explanation
Indices: 2496065--2496100 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2496055 TCTCTCTCTC
2496065 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2496101 GAAGGTATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2502162 original size:15 final size:16
Alignment explanation
Indices: 2502129--2502168 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
2502119 AAGTTAGTCA
*
2502129 TTTTAGAATCAAATCT
1 TTTTAGATTCAAATCT
2502145 TTTTAGATTCAAAT-T
1 TTTTAGATTCAAATCT
2502160 TTTTAGATT
1 TTTTAGATT
2502169 GAATTACTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (16 bp):
TTTTAGATTCAAATCT
Found at i:2503199 original size:25 final size:25
Alignment explanation
Indices: 2503160--2503224 Score: 91
Period size: 22 Copynumber: 2.6 Consensus size: 25
2503150 TTTATTATGC
2503160 AATTGATTTTTAGTTTATAATATTATT
1 AATT-ATTTTTAGTTT-TAATATTATT
2503187 AA-TATTTTTAG--TTAATATTATT
1 AATTATTTTTAGTTTTAATATTATT
2503209 AATTATTTTTAGTTTT
1 AATTATTTTTAGTTTT
2503225 TGTGCTATTG
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
22 12 0.34
23 10 0.29
25 10 0.29
26 1 0.03
27 2 0.06
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (25 bp):
AATTATTTTTAGTTTTAATATTATT
Found at i:2503277 original size:22 final size:22
Alignment explanation
Indices: 2503230--2503280 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
2503220 GTTTTTGTGC
* *
2503230 TATTGATTTATTGATTTTAGTA
1 TATTGATTTATTAATATTAGTA
* *
2503252 TATTGATTTATTAATATTATTT
1 TATTGATTTATTAATATTAGTA
2503274 TATTGAT
1 TATTGAT
2503281 GTGGATTGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (22 bp):
TATTGATTTATTAATATTAGTA
Found at i:2503659 original size:19 final size:19
Alignment explanation
Indices: 2503635--2503702 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
2503625 AATTCAACAA
2503635 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2503654 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2503669 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2503686 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2503703 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2503674 original size:13 final size:13
Alignment explanation
Indices: 2503656--2503680 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2503646 ACATAAGTTT
2503656 TGTATCGATACAA
1 TGTATCGATACAA
2503669 TGTATCGATACA
1 TGTATCGATACA
2503681 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2503678 original size:32 final size:32
Alignment explanation
Indices: 2503637--2503699 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2503627 TTCAACAATT
*
2503637 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2503669 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2503700 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2503760 original size:13 final size:13
Alignment explanation
Indices: 2503742--2503767 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2503732 CATTTTTCTG
2503742 TGTATCGATACAT
1 TGTATCGATACAT
2503755 TGTATCGATACAT
1 TGTATCGATACAT
2503768 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2503766 original size:33 final size:33
Alignment explanation
Indices: 2503724--2503788 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
2503714 CAAGGAAATA
***
2503724 TATCGATACATTTTTCTGTGTATCGATACATTG
1 TATCGATACATGGATCTGTGTATCGATACATTG
*
2503757 TATCGATACATGGATCTTTGTATCGATACATT
1 TATCGATACATGGATCTGTGTATCGATACATT
2503789 TGGAAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (33 bp):
TATCGATACATGGATCTGTGTATCGATACATTG
Found at i:2506311 original size:28 final size:27
Alignment explanation
Indices: 2506244--2506312 Score: 95
Period size: 27 Copynumber: 2.5 Consensus size: 27
2506234 CTTCACAATC
*
2506244 GGGGATACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
2506271 GGGGATACTCCAACCCCGTTATTTCCA-A
1 GGGGATACTCCAACCCCGTTA-AT-CATA
2506299 GGGGATACTCCAAC
1 GGGGATACTCCAAC
2506313 TCCGGTTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 21 0.55
28 15 0.39
29 2 0.05
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:2506354 original size:107 final size:104
Alignment explanation
Indices: 2506190--2506582 Score: 330
Period size: 107 Copynumber: 3.7 Consensus size: 104
2506180 TTCTATATTC
*
2506190 GGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCC
1 GGGGATACTCCAACTCCGATTTTA-TTCC-AAAAACACCAATTT-TTCACAATCGGGGATACTCC
2506255 AACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCAA
63 AACCCCGTTAATCATCGGGGATACTCCAACCCCGTTA-TTCC-A
* * *
2506299 GGGGATACTCCAACTCCGGTTTTA-TCGCTAAAACACTAATTTTTCCACAATCGGGGATACTCCA
1 GGGGATACTCCAACTCCGATTTTATTC-CAAAAACACCAATTTTT-CACAATCGGGGATACTCCA
** * ** * * * ** * *
2506363 ATCCTGGTTTTATTTTC---AAAACGCCAATTTTCCTTTAAT-C-
64 A-CCCCG-TTAATCATCGGGGATACTCCAA--CCCCGTTATTCCA
* *
2506403 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACTCCGATTTTA-TTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAA
* *
2506468 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
65 CCCCGTTA-ATCATCGGGGATACTCCAACCCCGTTA-TTCC-A
* ** * * *** * * *
2506511 GGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAAC
1 GGGGATACTCCAACTCCGATTTTATTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
2506576 CCCGTTA
66 CCCGTTA
2506583 TTTTCGAAGG
Statistics
Matches: 223, Mismatches: 45, Indels: 34
0.74 0.15 0.11
Matches are distributed among these distances:
102 2 0.01
103 7 0.03
104 47 0.21
105 15 0.07
106 20 0.09
107 74 0.33
108 30 0.13
109 28 0.13
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (104 bp):
GGGGATACTCCAACTCCGATTTTATTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
CCCGTTAATCATCGGGGATACTCCAACCCCGTTATTCCA
Found at i:2506372 original size:52 final size:51
Alignment explanation
Indices: 2506299--2506468 Score: 175
Period size: 52 Copynumber: 3.3 Consensus size: 51
2506289 TTATTTCCAA
*
2506299 GGGGATACTCCAACTCCGGTTTTATCGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACTCCGGTTTTATC-CTAAAACACCAATTTTTCCACAATC
** * **
2506351 GGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACTCC-GGTTTTATCCT-AAAACACCAATTTTTCC-ACAATC
* * *
2506403 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACTCCGGTTTTA--TCCTAAAACACCAATTTTTCCACAATC
*
2506455 GAGGATACTCCAAC
1 GGGGATACTCCAAC
2506469 CTCGTTATTT
Statistics
Matches: 96, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
51 10 0.10
52 69 0.72
53 12 0.12
54 5 0.05
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACTCCGGTTTTATCCTAAAACACCAATTTTTCCACAATC
Found at i:2506452 original size:104 final size:103
Alignment explanation
Indices: 2506132--2506467 Score: 297
Period size: 104 Copynumber: 3.2 Consensus size: 103
2506122 ATCAATTCTC
* * * *
2506132 CACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTT-CTATATTCGGGGAT
1 CACAATCGAGGATACTCCAA-TCCGGTTTTATTTTCAAAACACCAATTTTCCTTTATTCGGGGAT
*
2506196 ACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTT
65 ACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTT-TT
* * * * ** * * * ** *
2506237 CACAATCGGGGATACTCCAACCCCG-TTAATCATCGGGGATACTCCAA--CCCCGTTATTTCCAA
1 CACAATCGAGGATACTCCAATCCGGTTTTATTTTC---AAAACACCAATTTTCCTTTA-TT-C--
* * *
2506299 GGGGATACTCCAACTCCGGTTTTA--TCGCTAAAACACTAATTTTT
59 GGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAATTTTT
* * *
2506343 CCACAATCGGGGATACTCCAATCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGA
1 -CACAATCGAGGATACTCCAATCC-GGTTTTATTTTCAAAACACCAATTTTCCTTTATTCGGGGA
*
2506408 TACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
64 TACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
2506448 CACAATCGAGGATACTCCAA
1 CACAATCGAGGATACTCCAA
2506468 CCTCGTTATT
Statistics
Matches: 178, Mismatches: 37, Indels: 33
0.72 0.15 0.13
Matches are distributed among these distances:
103 6 0.03
104 44 0.25
105 35 0.20
106 20 0.11
107 38 0.21
108 7 0.04
109 28 0.16
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (103 bp):
CACAATCGAGGATACTCCAATCCGGTTTTATTTTCAAAACACCAATTTTCCTTTATTCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
Found at i:2506488 original size:28 final size:28
Alignment explanation
Indices: 2506452--2506528 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
2506442 ATTTTTCACA
* * *
2506452 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
2506480 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
2506508 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
2506529 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:2506497 original size:212 final size:212
Alignment explanation
Indices: 2506130--2506535 Score: 620
Period size: 212 Copynumber: 1.9 Consensus size: 212
2506120 TTATCAATTC
* * *
2506130 TCCACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATATTCGGGGA
1 TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
2506195 TACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
* * *
2506260 CGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACTCCGGTTTTATC
131 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCAAGGGGATACTCCAACCCCGGCTTTATC
2506325 GCTAAAACACTAATTTT
196 GCTAAAACACTAATTTT
* * * *
2506342 TCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGAGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
*
2506406 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* * *
2506469 CTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
129 CCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCAAGGGGATACTCCAACCCCGGCTTT
2506534 AT
193 AT
2506536 TCCCAAAATA
Statistics
Matches: 175, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
211 31 0.18
212 110 0.63
213 34 0.19
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.31
Consensus pattern (212 bp):
TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCAAGGGGATACTCCAACCCCGGCTTTATC
GCTAAAACACTAATTTT
Found at i:2508959 original size:57 final size:57
Alignment explanation
Indices: 2508871--2508984 Score: 201
Period size: 57 Copynumber: 2.0 Consensus size: 57
2508861 ACCATACTCT
*
2508871 TATTGGCTGATAATGCTTGTTGTACATAATTTACTACCAAGAATGTTTATGAAGCAA
1 TATTGGCTGATAATGCTTGTTGTACATAATTTACTACCAAGAATGTGTATGAAGCAA
* *
2508928 TATTGGTTGATAATGCTTGTTGTACATAATTTACTACTAAGAATGTGTATGAAGCAA
1 TATTGGCTGATAATGCTTGTTGTACATAATTTACTACCAAGAATGTGTATGAAGCAA
2508985 CCATATTTTC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (57 bp):
TATTGGCTGATAATGCTTGTTGTACATAATTTACTACCAAGAATGTGTATGAAGCAA
Found at i:2510043 original size:18 final size:19
Alignment explanation
Indices: 2510006--2510049 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
2509996 ATATTTTTCA
*
2510006 ATTCAATGAAACATATGTCT
1 ATTCACTGAAACA-ATGTCT
2510026 ATTCACTGAAAC-ATGTCT
1 ATTCACTGAAACAATGTCT
2510044 ATTCAC
1 ATTCAC
2510050 CTACCTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.52
20 11 0.48
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.34
Consensus pattern (19 bp):
ATTCACTGAAACAATGTCT
Found at i:2511913 original size:2 final size:2
Alignment explanation
Indices: 2511906--2512022 Score: 234
Period size: 2 Copynumber: 58.5 Consensus size: 2
2511896 CTAATTTCTT
2511906 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
2511948 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
2511990 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
2512023 ATATATATAT
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 115 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:2512027 original size:2 final size:2
Alignment explanation
Indices: 2512022--2512061 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
2512012 TCTCTCTCTC
2512022 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2512062 GAAGGTGCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2512431 original size:22 final size:22
Alignment explanation
Indices: 2512401--2512446 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
2512391 TTACACTATA
* *
2512401 ATATTATATATATTTATTATTT
1 ATATAATATATAATTATTATTT
*
2512423 ATATAATATATAATTATTCTTT
1 ATATAATATATAATTATTATTT
2512445 AT
1 AT
2512447 TTGATAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (22 bp):
ATATAATATATAATTATTATTT
Found at i:2514819 original size:12 final size:12
Alignment explanation
Indices: 2514802--2514827 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2514792 TATAAATAGA
2514802 GTGCGTGTGTGT
1 GTGCGTGTGTGT
2514814 GTGCGTGTGTGT
1 GTGCGTGTGTGT
2514826 GT
1 GT
2514828 CACTTGAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.50, T:0.42
Consensus pattern (12 bp):
GTGCGTGTGTGT
Found at i:2518428 original size:3 final size:3
Alignment explanation
Indices: 2518420--2518444 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2518410 TATGCATTTT
2518420 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
2518445 GTGAAATGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:2526258 original size:35 final size:35
Alignment explanation
Indices: 2526212--2526282 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
2526202 CAAGATATTT
*
2526212 TTGTATTTATTTGATCTTGTTTTATGAGTTTGCTA
1 TTGTACTTATTTGATCTTGTTTTATGAGTTTGCTA
2526247 TTGTACTTATTTGATCTTGTTTTATGAGTTTGCTA
1 TTGTACTTATTTGATCTTGTTTTATGAGTTTGCTA
2526282 T
1 T
2526283 GTGCTAGTGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.17, C:0.07, G:0.17, T:0.59
Consensus pattern (35 bp):
TTGTACTTATTTGATCTTGTTTTATGAGTTTGCTA
Found at i:2531315 original size:52 final size:52
Alignment explanation
Indices: 2531167--2531295 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
2531157 CGAAATATGA
2531167 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
2531219 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
2531271 AAATTTACCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2531296 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:2531322 original size:13 final size:13
Alignment explanation
Indices: 2531304--2531328 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2531294 CAAAGATCAG
2531304 TGTATCGATACAA
1 TGTATCGATACAA
2531317 TGTATCGATACA
1 TGTATCGATACA
2531329 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2531391 original size:13 final size:13
Alignment explanation
Indices: 2531373--2531456 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
2531363 AACTTCGTAG
2531373 CGATACATTGTAT
1 CGATACATTGTAT
2531386 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
2531405 CGATACATTGTAT
1 CGATACATTGTAT
2531418 CGATACAACACTTATGTAT
1 CGAT---ACA--T-TGTAT
2531437 CGATACATTGTAT
1 CGATACATTGTAT
2531450 CGATACA
1 CGATACA
2531457 ACACTTATGT
Statistics
Matches: 59, Mismatches: 0, Indels: 24
0.71 0.00 0.29
Matches are distributed among these distances:
13 26 0.44
14 1 0.02
15 2 0.03
16 8 0.14
17 2 0.03
18 1 0.02
19 19 0.32
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:2531405 original size:19 final size:18
Alignment explanation
Indices: 2531381--2531477 Score: 97
Period size: 19 Copynumber: 5.8 Consensus size: 18
2531371 AGCGATACAT
2531381 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
2531400 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
2531413 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
2531432 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
2531445 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
2531464 TGTATCGATACAAA
1 TGTATCGATACAAA
2531478 TCGTTGAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 25
0.73 0.00 0.27
Matches are distributed among these distances:
13 22 0.33
14 2 0.03
16 4 0.06
18 3 0.05
19 35 0.53
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:2531411 original size:32 final size:32
Alignment explanation
Indices: 2531373--2531475 Score: 197
Period size: 32 Copynumber: 3.2 Consensus size: 32
2531363 AACTTCGTAG
*
2531373 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
2531405 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
2531437 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
2531469 CGATACA
1 CGATACA
2531476 AATCGTTGAA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 70 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:2532308 original size:13 final size:12
Alignment explanation
Indices: 2532268--2532348 Score: 70
Period size: 13 Copynumber: 7.1 Consensus size: 12
2532258 CTGCCAAAAA
2532268 ATGTATCGATAC
1 ATGTATCGATAC
2532280 AT-TACTC-A-A-
1 ATGTA-TCGATAC
2532289 ATGTATCGATAC
1 ATGTATCGATAC
2532301 ATTGTATCGATAC
1 A-TGTATCGATAC
2532314 AT-TACTC-A-A-
1 ATGTA-TCGATAC
2532323 ATGTATCGATAC
1 ATGTATCGATAC
2532335 ATTGTATCGATAC
1 A-TGTATCGATAC
2532348 A
1 A
2532349 CTGATCTTTG
Statistics
Matches: 57, Mismatches: 0, Indels: 23
0.71 0.00 0.29
Matches are distributed among these distances:
9 8 0.14
10 8 0.14
11 8 0.14
12 9 0.16
13 24 0.42
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:2532312 original size:34 final size:34
Alignment explanation
Indices: 2532269--2532348 Score: 160
Period size: 34 Copynumber: 2.4 Consensus size: 34
2532259 TGCCAAAAAA
2532269 TGTATCGATACATTACTCAAATGTATCGATACAT
1 TGTATCGATACATTACTCAAATGTATCGATACAT
2532303 TGTATCGATACATTACTCAAATGTATCGATACAT
1 TGTATCGATACATTACTCAAATGTATCGATACAT
2532337 TGTATCGATACA
1 TGTATCGATACA
2532349 CTGATCTTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (34 bp):
TGTATCGATACATTACTCAAATGTATCGATACAT
Found at i:2533313 original size:21 final size:21
Alignment explanation
Indices: 2533287--2533349 Score: 101
Period size: 21 Copynumber: 3.0 Consensus size: 21
2533277 CAACCCATGA
*
2533287 TTCATGCATTTTGAGCTATGT
1 TTCATGCATTTAGAGCTATGT
2533308 TTCATGCATTTAGAGCTATGT
1 TTCATGCATTTAGAGCTATGT
*
2533329 TTCATGCATTTACAGC-ATGT
1 TTCATGCATTTAGAGCTATGT
2533349 T
1 T
2533350 CAACACCTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 5 0.12
21 35 0.88
ACGTcount: A:0.22, C:0.16, G:0.17, T:0.44
Consensus pattern (21 bp):
TTCATGCATTTAGAGCTATGT
Found at i:2535702 original size:31 final size:27
Alignment explanation
Indices: 2535664--2535720 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 27
2535654 GAAGATGCCA
2535664 CCAACTTGTGTGGGCTTTTGAAAGGGTTGCG
1 CCAACTTGTGT--GCTTTT-AAA-GGTTGCG
2535695 CCAACTTGTGTGCTTTTAAAGGTTGC
1 CCAACTTGTGTGCTTTTAAAGGTTGC
2535721 CACTGACTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 6 0.23
28 3 0.12
29 6 0.23
31 11 0.42
ACGTcount: A:0.18, C:0.18, G:0.30, T:0.35
Consensus pattern (27 bp):
CCAACTTGTGTGCTTTTAAAGGTTGCG
Found at i:2535781 original size:59 final size:59
Alignment explanation
Indices: 2535712--2535924 Score: 313
Period size: 59 Copynumber: 3.6 Consensus size: 59
2535702 GTGTGCTTTT
* *
2535712 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGAAACCACTGACTTGTGGGCTTTGGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGAAACCACTGACTTGTGGGCTTTGGA
** *
2535771 AAAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGAGCTTTGGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGAAACCACTGACTTGTGGGCTTTGGA
* ***
2535830 AAAGGGTGCCACTAACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTGGA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGGAAAA-GAAACCACTGACTTGTGGGCTTTGGA
*
2535890 AAA-GATGCCACTGACTTGTGGGCTTT-GAAAAGAAA
1 AAAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGAAA
2535925 AATGTGCCAC
Statistics
Matches: 140, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
57 1 0.01
58 5 0.04
59 107 0.76
60 27 0.19
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (59 bp):
AAAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGAAACCACTGACTTGTGGGCTTTGGA
Found at i:2535785 original size:30 final size:30
Alignment explanation
Indices: 2535712--2535921 Score: 311
Period size: 30 Copynumber: 7.1 Consensus size: 30
2535702 GTGTGCTTTT
* *
2535712 AAAGGTTGCCACTGACTTGTGGGCTTTTGA
1 AAAGGATGCCACTGACTTGTGGGCTTTGGA
**
2535742 AAA-GAAACCACTGACTTGTGGGCTTTGGA
1 AAAGGATGCCACTGACTTGTGGGCTTTGGA
*
2535771 AAAGGGTGCCACTGACTTGTGGGCTTTGGA
1 AAAGGATGCCACTGACTTGTGGGCTTTGGA
*
2535801 AAA-GATGCCACTGACTTGTGAGCTTTGGA
1 AAAGGATGCCACTGACTTGTGGGCTTTGGA
* *
2535830 AAAGGGTGCCACTAACTTGTGGGCTTTGGA
1 AAAGGATGCCACTGACTTGTGGGCTTTGGA
*
2535860 AAAGGGTGCCACTGACTTGTGGGCTTTGGA
1 AAAGGATGCCACTGACTTGTGGGCTTTGGA
2535890 AAA-GATGCCACTGACTTGTGGGCTTT-GA
1 AAAGGATGCCACTGACTTGTGGGCTTTGGA
2535918 AAAG
1 AAAG
2535922 AAAAATGTGC
Statistics
Matches: 163, Mismatches: 14, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
28 5 0.03
29 74 0.45
30 84 0.52
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (30 bp):
AAAGGATGCCACTGACTTGTGGGCTTTGGA
Found at i:2535864 original size:89 final size:88
Alignment explanation
Indices: 2535718--2535921 Score: 338
Period size: 89 Copynumber: 2.3 Consensus size: 88
2535708 TTTTAAAGGT
*
2535718 TGCCACTGACTTGTGGGCTTTTGAAAA-GAAACCACTGACTTGTGGGCTTTGGAAAAGGGTGCCA
1 TGCCACTGACTTGTGGGC-TTTGAAAAGGAAACCACTAACTTGTGGGCTTTGGAAAAGGGTGCCA
2535782 CTGACTTGTGGGCTTTGGAAAAGA
65 CTGACTTGTGGGCTTTGGAAAAGA
* ***
2535806 TGCCACTGACTTGTGAGCTTTGGAAAAGGGTGCCACTAACTTGTGGGCTTTGGAAAAGGGTGCCA
1 TGCCACTGACTTGTGGGCTTT-GAAAAGGAAACCACTAACTTGTGGGCTTTGGAAAAGGGTGCCA
2535871 CTGACTTGTGGGCTTTGGAAAAGA
65 CTGACTTGTGGGCTTTGGAAAAGA
2535895 TGCCACTGACTTGTGGGCTTTGAAAAG
1 TGCCACTGACTTGTGGGCTTTGAAAAG
2535922 AAAAATGTGC
Statistics
Matches: 108, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
87 3 0.03
88 28 0.26
89 77 0.71
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.27
Consensus pattern (88 bp):
TGCCACTGACTTGTGGGCTTTGAAAAGGAAACCACTAACTTGTGGGCTTTGGAAAAGGGTGCCAC
TGACTTGTGGGCTTTGGAAAAGA
Found at i:2535933 original size:34 final size:34
Alignment explanation
Indices: 2535718--2536192 Score: 315
Period size: 34 Copynumber: 14.8 Consensus size: 34
2535708 TTTTAAAGGT
*
2535718 TGCCACTGACTTGTGGGCTTTTGAAAAG---AA-A
1 TGCCACTGAGTTGTGGGC-TTTGAAAAGAAAAAGA
* * *
2535749 --CCACTGACTTGTGGGCTTTG----GAAAAGGG
1 TGCCACTGAGTTGTGGGCTTTGAAAAGAAAAAGA
*
2535777 TGCCACTGACTTGTGGGCTTTG----G-AAAAGA
1 TGCCACTGAGTTGTGGGCTTTGAAAAGAAAAAGA
* * * *
2535806 TGCCACTGACTTGTGAGCTTTG----GAAAAGGG
1 TGCCACTGAGTTGTGGGCTTTGAAAAGAAAAAGA
* * * *
2535836 TGCCACTAACTTGTGGGCTTTG----GAAAAGGG
1 TGCCACTGAGTTGTGGGCTTTGAAAAGAAAAAGA
*
2535866 TGCCACTGACTTGTGGGCTTTG----G-AAAAGA
1 TGCCACTGAGTTGTGGGCTTTGAAAAGAAAAAGA
*
2535895 TGCCACTGACTTGTGGGCTTTGAAAAGAAAAATG-
1 TGCCACTGAGTTGTGGGCTTTGAAAAGAAAAA-GA
* *
2535929 TGCCACGGAGTTGTGGGCTTT-AAAAGGGAAAAGA
1 TGCCACTGAGTTGTGGGCTTTGAAAA-GAAAAAGA
* *
2535963 TGCCAC-GAAGTTGTGGGC-TTAAAAAGGGAAAAGA
1 TGCCACTG-AGTTGTGGGCTTTGAAAA-GAAAAAGA
* *
2535997 TGCCAC-GAAGTTGTGGGC-TTAAAAAGGGAAAAGA
1 TGCCACTG-AGTTGTGGGCTTTGAAAA-GAAAAAGA
* *
2536031 TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGG
1 TGCCACTGAGTTGTGGGCTTTGAAAAGAAAAAGA
* **
2536065 TGCCACGGAGTTGTGGGCTTT-AAAAGGATGAAGA
1 TGCCACTGAGTTGTGGGCTTTGAAAA-GAAAAAGA
* **
2536099 TGCCACGGAGTTGTGGGCTTT-AAAAGGATGAAGA
1 TGCCACTGAGTTGTGGGCTTTGAAAA-GAAAAAGA
* *
2536133 TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGG
1 TGCCACTGAGTTGTGGGCTTTGAAAAGAAAAAGA
2536167 TGCCAC-GAGGTTGTGGGCTTT-AAAAG
1 TGCCACTGA-GTTGTGGGCTTTGAAAAG
2536193 TGTGAGGAAT
Statistics
Matches: 398, Mismatches: 24, Indels: 42
0.86 0.05 0.09
Matches are distributed among these distances:
24 1 0.00
27 1 0.00
28 4 0.01
29 68 0.17
30 75 0.19
33 20 0.05
34 217 0.55
35 12 0.03
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (34 bp):
TGCCACTGAGTTGTGGGCTTTGAAAAGAAAAAGA
Found at i:2535981 original size:68 final size:66
Alignment explanation
Indices: 2535887--2536192 Score: 382
Period size: 68 Copynumber: 4.5 Consensus size: 66
2535877 TGTGGGCTTT
*
2535887 GGAAAAGATGCCACTG-ACTTGTGGGCTTTGAAAAGAAAAATG-TGCCACGGAGTTGTGGGCTTT
1 GGAAAAGATGCCAC-GAAGTTGTGGGCTTT-AAAAGAAAAA-GATGCCACGGAGTTGTGGGCTTT
2535950 AAAA
63 AAAA
* * * *
2535954 GGGAAAAGATGCCACGAAGTTGTGGGCTTAAAAAGGGAAAAGATGCCACGAAGTTGTGGGCTTAA
1 -GGAAAAGATGCCACGAAGTTGTGGGCTTTAAAA-GAAAAAGATGCCACGGAGTTGTGGGCTTTA
2536019 AAA
64 AAA
* *
2536022 GGGAAAAGATGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTA
1 -GGAAAAGATGCCACGAAGTTGTGGGCTTT-AAAAGAAAAAGATGCCACGGAGTTGTGGGCTTTA
2536087 AAA
64 AAA
* * **
2536090 GGATGAAGATGCCACGGAGTTGTGGGCTTTAAAAGGATGAAGATGCCACGGAGTTGTGGGCTTTG
1 GGA-AAAGATGCCACGAAGTTGTGGGCTTTAAAA-GAAAAAGATGCCACGGAGTTGTGGGCTTT-
2536155 AAAA
63 AAAA
* * *
2536159 GAAAAAGGTGCCACGAGGTTGTGGGCTTTAAAAG
1 GGAAAAGATGCCACGAAGTTGTGGGCTTTAAAAG
2536193 TGTGAGGAAT
Statistics
Matches: 211, Mismatches: 20, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
67 14 0.07
68 187 0.89
69 10 0.05
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (66 bp):
GGAAAAGATGCCACGAAGTTGTGGGCTTTAAAAGAAAAAGATGCCACGGAGTTGTGGGCTTTAAA
A
Found at i:2536037 original size:102 final size:100
Alignment explanation
Indices: 2535887--2536192 Score: 411
Period size: 102 Copynumber: 3.0 Consensus size: 100
2535877 TGTGGGCTTT
* * *
2535887 GGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAAAAATG-TGCCACGGAGTTGTGGGCTTT-
1 GGAAAAGATGCCAC-GAGTTGTGGGC-TTAAAAAGGAAAA-GATGCCACGGAGTTGTGGGCTTTG
* * *
2535950 AAAAGGGAAAAGATGCCACGAAGTTGTGGGCTTAAAAAG
63 AAAA-GAAAAAGGTGCCACGAAGTTGTGGGCTTTAAAAG
2535989 GGAAAAGATGCCACGAAGTTGTGGGCTTAAAAAGGGAAAAGATGCCACGGAGTTGTGGGCTTTGA
1 GGAAAAGATGCCACG-AGTTGTGGGCTTAAAAA-GGAAAAGATGCCACGGAGTTGTGGGCTTTGA
*
2536054 AAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA-
64 AAAGAAAAAGGTGCCACGAAGTTGTGGGCTTTAAAAG
* * *
2536090 GGATGAAGATGCCACGGAGTTGTGGGCTTTAAAAGGATGAAGATGCCACGGAGTTGTGGGCTTTG
1 GGA-AAAGATGCCAC-GAGTTGTGGGCTTAAAAAGGA-AAAGATGCCACGGAGTTGTGGGCTTTG
*
2536155 AAAAGAAAAAGGTGCCACGAGGTTGTGGGCTTTAAAAG
63 AAAAGAAAAAGGTGCCACGAAGTTGTGGGCTTTAAAAG
2536193 TGTGAGGAAT
Statistics
Matches: 184, Mismatches: 12, Indels: 15
0.87 0.06 0.07
Matches are distributed among these distances:
101 14 0.08
102 165 0.90
103 5 0.03
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (100 bp):
GGAAAAGATGCCACGAGTTGTGGGCTTAAAAAGGAAAAGATGCCACGGAGTTGTGGGCTTTGAAA
AGAAAAAGGTGCCACGAAGTTGTGGGCTTTAAAAG
Found at i:2537648 original size:20 final size:21
Alignment explanation
Indices: 2537623--2537666 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
2537613 ATCCGGACCC
2537623 TTTTT-GTTGTTG-TTGTTTTT
1 TTTTTGGTT-TTGTTTGTTTTT
2537643 TTTTTGGTTTTGTTTGTTTTT
1 TTTTTGGTTTTGTTTGTTTTT
2537664 TTT
1 TTT
2537667 CTCTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (21 bp):
TTTTTGGTTTTGTTTGTTTTT
Found at i:2537674 original size:21 final size:21
Alignment explanation
Indices: 2537635--2537674 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2537625 TTTGTTGTTG
* *
2537635 TTGTTTTTTTTTTGGTTTTGT
1 TTGTTTTTTTTCTCGTTTTGT
*
2537656 TTGTTTTTTTTCTCTTTTT
1 TTGTTTTTTTTCTCGTTTT
2537675 TTTTTGTGGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.00, C:0.05, G:0.12, T:0.82
Consensus pattern (21 bp):
TTGTTTTTTTTCTCGTTTTGT
Found at i:2551696 original size:52 final size:52
Alignment explanation
Indices: 2551548--2551676 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
2551538 CGAAATATGA
*
2551548 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATATGGGC
* * *
2551600 AAATTTGCTTGTAAGTATCGATACATTTCATAGTGTATCGATACATATGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATATGGGC
2551652 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2551677 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATATGGGC
Found at i:2551772 original size:13 final size:13
Alignment explanation
Indices: 2551754--2551805 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
2551744 AGCTTCGTAG
2551754 CGATACATTGTAT
1 CGATACATTGTAT
2551767 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
2551786 CGATACATTGTAT
1 CGATACATTGTAT
2551799 CGATACA
1 CGATACA
2551806 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:2551786 original size:19 final size:19
Alignment explanation
Indices: 2551762--2551826 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
2551752 AGCGATACAT
2551762 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
2551781 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
2551794 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
2551813 TGTATCGATACAAA
1 TGTATCGATACAAA
2551827 TCGTTGAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 1 0.03
19 24 0.62
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:2551795 original size:32 final size:32
Alignment explanation
Indices: 2551754--2551824 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
2551744 AGCTTCGTAG
2551754 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
2551786 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
2551818 CGATACA
1 CGATACA
2551825 AATCGTTGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:2557077 original size:24 final size:24
Alignment explanation
Indices: 2557010--2557080 Score: 97
Period size: 26 Copynumber: 2.9 Consensus size: 24
2557000 GTTTAAATAT
*
2557010 ATAAAATTTTAAGAAACATTAATG
1 ATAAAATTTTAAGAAAAATTAATG
* *
2557034 ATATTATATTGTAAGAAAAATTAATG
1 ATA--AAATTTTAAGAAAAATTAATG
2557060 ATAAAATTTTAAGAAAAATTA
1 ATAAAATTTTAAGAAAAATTA
2557081 GTATTACTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
24 19 0.47
26 21 0.52
ACGTcount: A:0.55, C:0.01, G:0.08, T:0.35
Consensus pattern (24 bp):
ATAAAATTTTAAGAAAAATTAATG
Found at i:2558763 original size:1 final size:1
Alignment explanation
Indices: 2558703--2558754 Score: 104
Period size: 1 Copynumber: 52.0 Consensus size: 1
2558693 TTTGGGGGTT
2558703 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
2558755 CGCGGGGGGC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:2560681 original size:13 final size:12
Alignment explanation
Indices: 2560663--2560707 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 12
2560653 ATAATGCACA
2560663 GTATCGATACATT
1 GTATCGATACA-T
2560676 GTATCGATACAT
1 GTATCGATACAT
2560688 G-ATC-A-A-AT
1 GTATCGATACAT
2560696 GTATCGATACAT
1 GTATCGATACAT
2560708 TGGCTTGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
8 3 0.11
9 4 0.14
10 2 0.07
11 4 0.14
12 4 0.14
13 11 0.39
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (12 bp):
GTATCGATACAT
Found at i:2560700 original size:33 final size:33
Alignment explanation
Indices: 2560646--2560709 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
2560636 TTCAGATGTT
*
2560646 TCGATACATAATGCACAGTATCGATACATTGTA
1 TCGATACATAATGCAAAGTATCGATACATTGTA
*
2560679 TCGATACATGAT-CAAATGTATCGATACATTG
1 TCGATACATAATGCAAA-GTATCGATACATTG
2560710 GCTTGTAACG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 3 0.11
33 25 0.89
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (33 bp):
TCGATACATAATGCAAAGTATCGATACATTGTA
Found at i:2566879 original size:13 final size:13
Alignment explanation
Indices: 2566861--2566896 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
2566851 ACATTCTCTA
*
2566861 TATCGATACATTG
1 TATCGATACAGTG
2566874 TATCGATACAGTG
1 TATCGATACAGTG
2566887 TATCGATACA
1 TATCGATACA
2566897 AGGGGTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (13 bp):
TATCGATACAGTG
Found at i:2569401 original size:20 final size:20
Alignment explanation
Indices: 2569378--2569429 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2569368 ACCTTCAGAT
2569378 GTATCGATACATAATGCACA
1 GTATCGATACATAATGCACA
*
2569398 GTATCAATACATAATGCACA
1 GTATCGATACATAATGCACA
2569418 GTATCGATACAT
1 GTATCGATACAT
2569430 GACCACTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.27
Consensus pattern (20 bp):
GTATCGATACATAATGCACA
Found at i:2569532 original size:13 final size:13
Alignment explanation
Indices: 2569514--2569539 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2569504 ACATACAAGA
2569514 TGTATCGATACAT
1 TGTATCGATACAT
2569527 TGTATCGATACAT
1 TGTATCGATACAT
2569540 GACCAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Done.